Amir Karger wrote:
> A client of mine stole the pairwise Ka/Ks code from the "Running PAML
> from within Bioperl" section of the PAML HOWTO. It mostly seems to be
> running fine. However, when we say
> $result = $parser->next_result;
>> we get an undef $result.
>> 1) Is there something I can look for in the output files to show me
> whether it's a problem with Bioperl itself (Never!) or with CODEML?
>> 2) Is there a previously known issue with Bioperl's incorrectly reading
> such files? Bio::Root::Version says it's 1.5, by the way.
>> 3) Something else I haven't thought of?
>> Thanks,
>> Amir Karger
> Research Computing, Life Sciences Division
> Harvard University
>> _______________________________________________
> Bioperl-l mailing list
>Bioperl-l at lists.open-bio.org>http://lists.open-bio.org/mailman/listinfo/bioperl-l>>Do you get a message saying you have no sites? Have you looked at the
alignments?
Stefan